Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002634

Physical Location & Seq

Genomic Coordinates Reverse (-)

78147656 .. 78151599

Gene Structure 3944 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG497900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 585 bp

ATGGAATCCGTCCCCTCTATTGTTGAGGCACCAACTATTGCAGCAGCAGCTTATTTGAGATTGGCAGGAAGACCCCCAGTTCTCCCATCTAACAACCTTTCTTATTCCGAGAACTTCTTATACATGCTAGACTCCTTGGGCAATAGAGCTTATAAACCAAATCCCTGCCTCGCCCGAGTATTGGACATTCTCTTCATACTCCATGCTGAACATGAGATGAATTGCTCAACGGCTGCTGCTCGGCATCTGGCGTCAAGTGGTGTGGATGTTTACACTGTCCTTTCTGGAGCTGTTGGAGCTCTATATGGTCCCCTTCATGGTGGAGCAAATGAGGCTGTGCTTAAGATGCTAAGTGAAATTGGATCTGTTGAGAACATTCCAGAGTTCATTGAGGGTGTGAAGAGTTTTTGTTTTGCAGGAAATTTACTACATTATCCCGCAGAGCATGTTATTTATGGGGACTATTTGCTAGAGAGTTGGGATGAGAAATTGATAGAATACACTCTAGGTTTCTTGAGACCAGAAAACATGAGGATTGATGTGATATCTAAGTCCTCCACGTTGTCAGAAGATTTCCAGTGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004108 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005777 GO:0005911 GO:0006082 GO:0006629 GO:0006631 GO:0006635 GO:0008150 GO:0008152 GO:0009056 GO:0009062 GO:0009506 GO:0009514 GO:0009987 GO:0016042 GO:0016054 GO:0016740 GO:0016746 GO:0019395 GO:0019752 GO:0030054 GO:0030258 GO:0032787 GO:0034440 GO:0036440 GO:0042579 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044242 GO:0044248 GO:0044255 GO:0044281 GO:0044282 GO:0044424 GO:0044444 GO:0044464 GO:0046395 GO:0046912 GO:0055044 GO:0055114 GO:0071704 GO:0072329 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko00020 ko00630 ko01100 ko01110 ko01120 ko01130 ko01200 ko01210 ko01230 map00020 map00630 map01100 map01110 map01120 map01130 map01200 map01210 map01230

Pfam Domains

Protein Families

Citrate_synt

Protein Analysis

194

Amino Acids

21.23

Weight (kDa)

4.86

Isoelectric Point (pI)

40.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Citrate_synt	PF00285	8 - 133	1.1e-43	Citrate synthase, C-terminal domain
Peptidase_M16_M	PF16187	139 - 186	1.5e-10	Middle or third domain of peptidase_M16

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0002634)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G42790 AT3G58740 AT3G58750
fragaria_vesca	FvH4_5g27540 FvH4_6g37750
malus_domestica	MD09G1156400.v1.1 MD17G1142900.v1.1
prunus_persica	Prupe.3G169400_v2.0.a1
pyrus_communis	pycom09g07510 pycom17g13590 pycom17g13600
rosa_chinensis	RchiOBHm_Chr2g0143111 RchiOBHm_Chr2g0150811 RchiOBHm_Chr7g0233461
rosa_laevigata	RLG00000020508
rosa_multiflora	Rmu_co8164368.1_g000001 Rmu_co8192116.1_g000001 Rmu_co8272387.1_g000001 Rmu_sc0003819.1_g000005 Rmu_sc0004794.1_g000003 Rmu_sc0020410.1_g000001
rosa_roxburghii	Rroxscaffold_2G00096940 Rroxscaffold_3G00251810
rosa_rugosa	Rorug02G0103600 Rorug02G0179700 Rorug02G0422600
rosa_samantha	Rh2AG024100 Rh2AG482700 Rh2BG495300 Rh2CG469000 Rh2DG450300 Rh2DG506100 Rh4CG229100 Rh4DG032400 Rh4DG200800 Rh5AG029300 Rh5CG031600 Rh5DG497900 Rh6CG201800
rosa_wichuraiana	Rw2G039560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	153
AccB1I	GGYRCC	1 cut(s)	28
AciI	CCGC	1 cut(s)	438
AclWI	GGATC	1 cut(s)	370
AcsI	RAATTY	1 cut(s)	421
AcyI	GRCGYC	1 cut(s)	251
AfiI	CCNNNNNNNGG	2 cut(s)	181, 317
AflII	CTTAAG	1 cut(s)	341
AluBI	AGCT	4 cut(s)	50, 149, 290, 299
AluI	AGCT	4 cut(s)	50, 149, 290, 299
Alw21I	GWGCWC	1 cut(s)	301
Alw26I	GTCTC	1 cut(s)	511
AlwI	GGATC	1 cut(s)	370
Ama87I	CYCGRG	1 cut(s)	174
ApeKI	GCWGC	5 cut(s)	41, 44, 47, 233, 236
ApoI	RAATTY	1 cut(s)	421
AspS9I	GGNCC	1 cut(s)	308
AvaI	CYCGRG	1 cut(s)	174
AvaII	GGWCC	1 cut(s)	308
BanI	GGYRCC	1 cut(s)	28
BanII	GRGCYC	1 cut(s)	301
BbsI	GAAGAC	1 cut(s)	76
Bbv12I	GWGCWC	1 cut(s)	301
BbvI	GCAGC	5 cut(s)	53, 56, 59, 220, 223
BccI	CCATC	1 cut(s)	94
BceAI	ACGGC	1 cut(s)	246
BcoDI	GTCTC	1 cut(s)	511
BfaI	CTAG	4 cut(s)	128, 470, 506, 583
BfrI	CTTAAG	1 cut(s)	341
BisI	GCNGC	5 cut(s)	42, 45, 48, 234, 237
BlsI	GCNGC	5 cut(s)	43, 46, 49, 235, 238
Bme18I	GGWCC	1 cut(s)	308
BmeT110I	CYCGRG	1 cut(s)	174
BmgT120I	GGNCC	1 cut(s)	308
BmiI	GGNNCC	2 cut(s)	30, 310
BmrI	ACTGGG	1 cut(s)	71
BmsI	GCATC	2 cut(s)	253, 336
BmuI	ACTGGG	1 cut(s)	71
BpiI	GAAGAC	1 cut(s)	76
BpmI	CTGGAG	1 cut(s)	306
BpuEI	CTTGAG	1 cut(s)	535
BsaHI	GRCGYC	1 cut(s)	251
BsaI	GGTCTC	1 cut(s)	511
BsaJI	CCNNGG	1 cut(s)	135
Bsc4I	CCNNNNNNNGG	2 cut(s)	181, 317
Bse1I	ACTGG	2 cut(s)	77, 577
BseDI	CCNNGG	1 cut(s)	135
BseGI	GGATG	2 cut(s)	271, 487
BseLI	CCNNNNNNNGG	2 cut(s)	181, 317
BseNI	ACTGG	2 cut(s)	77, 577
BseXI	GCAGC	5 cut(s)	53, 56, 59, 220, 223
BshNI	GGYRCC	1 cut(s)	28
BsiHKAI	GWGCWC	1 cut(s)	301
BsiHKCI	CYCGRG	1 cut(s)	174
BslFI	GGGAC	2 cut(s)	294, 473
BslI	CCNNNNNNNGG	2 cut(s)	181, 317
BsmAI	GTCTC	1 cut(s)	511
BsmFI	GGGAC	2 cut(s)	294, 473
Bso31I	GGTCTC	1 cut(s)	511
BsoBI	CYCGRG	1 cut(s)	174
Bsp1286I	GDGCHC	1 cut(s)	301
Bsp143I	GATC	1 cut(s)	362
BspACI	CCGC	1 cut(s)	438
BspLI	GGNNCC	2 cut(s)	30, 310
BspPI	GGATC	1 cut(s)	370
BspT107I	GGYRCC	1 cut(s)	28
BspTI	CTTAAG	1 cut(s)	341
BspTNI	GGTCTC	1 cut(s)	511
BsrI	ACTGG	2 cut(s)	77, 577
BssECI	CCNNGG	1 cut(s)	135
BssMI	GATC	1 cut(s)	362
BssNI	GRCGYC	1 cut(s)	251
BssT1I	CCWWGG	1 cut(s)	135
Bst4CI	ACNGT	1 cut(s)	277
Bst6I	CTCTTC	2 cut(s)	197, 395
BstACI	GRCGYC	1 cut(s)	251
BstAFI	CTTAAG	1 cut(s)	341
BstDEI	CTNAG	2 cut(s)	350, 549
BstF5I	GGATG	2 cut(s)	271, 487
BstKTI	GATC	1 cut(s)	365
BstMAI	GTCTC	1 cut(s)	511
BstMBI	GATC	1 cut(s)	362
BstMWI	GCNNNNNNNGC	4 cut(s)	47, 296, 332, 346
BstNSI	RCATGY	2 cut(s)	127, 449
BstV1I	GCAGC	5 cut(s)	53, 56, 59, 220, 223
BstV2I	GAAGAC	1 cut(s)	76
BstX2I	RGATCY	1 cut(s)	362
BstYI	RGATCY	1 cut(s)	362
BtsCI	GGATG	2 cut(s)	271, 487
BtsIMutI	CAGTG	2 cut(s)	273, 584
Cfr13I	GGNCC	1 cut(s)	308
CseI	GACGC	1 cut(s)	240
CspCI	CAANNNNNGTGG	2 cut(s)	243, 278
CviAII	CATG	6 cut(s)	124, 203, 212, 317, 446, 529
CviJI	RGCY	6 cut(s)	50, 149, 233, 290, 299, 335
CviKI_1	RGCY	6 cut(s)	50, 149, 233, 290, 299, 335
DdeI	CTNAG	2 cut(s)	350, 549
DpnI	GATC	1 cut(s)	364
DpnII	GATC	1 cut(s)	362
Eam1104I	CTCTTC	2 cut(s)	197, 395
EarI	CTCTTC	2 cut(s)	197, 395
Ecl136II	GAGCTC	1 cut(s)	299
Eco130I	CCWWGG	1 cut(s)	135
Eco24I	GRGCYC	1 cut(s)	301
Eco31I	GGTCTC	1 cut(s)	511
Eco32I	GATATC	1 cut(s)	546
Eco47I	GGWCC	1 cut(s)	308
Eco53kI	GAGCTC	1 cut(s)	299
Eco88I	CYCGRG	1 cut(s)	174
EcoICRI	GAGCTC	1 cut(s)	299
EcoRV	GATATC	1 cut(s)	546
EcoT14I	CCWWGG	1 cut(s)	135
EcoT38I	GRGCYC	1 cut(s)	301
ErhI	CCWWGG	1 cut(s)	135
FaeI	CATG	6 cut(s)	127, 206, 215, 320, 449, 532
FaqI	GGGAC	2 cut(s)	294, 473
FatI	CATG	6 cut(s)	123, 202, 211, 316, 445, 528
FauI	CCCGC	1 cut(s)	445
Fnu4HI	GCNGC	5 cut(s)	42, 45, 48, 234, 237
FokI	GGATG	2 cut(s)	278, 494
FriOI	GRGCYC	1 cut(s)	301
Fsp4HI	GCNGC	5 cut(s)	42, 45, 48, 234, 237
FspBI	CTAG	4 cut(s)	128, 470, 506, 583
GluI	GCNGC	5 cut(s)	42, 45, 48, 234, 237
GsuI	CTGGAG	1 cut(s)	306
HgaI	GACGC	1 cut(s)	240
Hin1I	GRCGYC	1 cut(s)	251
Hin1II	CATG	6 cut(s)	127, 206, 215, 320, 449, 532
HinfI	GANTC	2 cut(s)	5, 131
Hpy166II	GTNNAC	1 cut(s)	271
Hpy188I	TCNGA	2 cut(s)	109, 568
Hpy188III	TCNNGA	3 cut(s)	285, 380, 514
Hpy8I	GTNNAC	1 cut(s)	271
HpyAV	CCTTC	1 cut(s)	323
HpyCH4III	ACNGT	1 cut(s)	277
HpyCH4IV	ACGT	1 cut(s)	560
HpyCH4V	TGCA	2 cut(s)	41, 416
HpyF10VI	GCNNNNNNNGC	4 cut(s)	47, 296, 332, 346
HpyF3I	CTNAG	2 cut(s)	350, 549
HpySE526I	ACGT	1 cut(s)	560
Hsp92I	GRCGYC	1 cut(s)	251
Hsp92II	CATG	6 cut(s)	127, 206, 215, 320, 449, 532
Kzo9I	GATC	1 cut(s)	362
LmnI	GCTCC	3 cut(s)	287, 296, 323
LpnPI	CCDG	8 cut(s)	51, 90, 178, 233, 270, 393, 402, 534
Lsp1109I	GCAGC	5 cut(s)	53, 56, 59, 220, 223
LweI	GCATC	2 cut(s)	253, 336
MaeI	CTAG	4 cut(s)	128, 470, 506, 583
MaeII	ACGT	1 cut(s)	560
MalI	GATC	1 cut(s)	364
MboI	GATC	1 cut(s)	362
MboII	GAAGA	4 cut(s)	81, 184, 412, 581
MflI	RGATCY	1 cut(s)	362
MhlI	GDGCHC	1 cut(s)	301
MluCI	AATT	4 cut(s)	220, 357, 421, 488
MlyI	GAGTC	1 cut(s)	125
MmeI	TCCRAC	1 cut(s)	274
MnlI	CCTC	7 cut(s)	19, 25, 179, 325, 385, 525, 565
MseI	TTAA	1 cut(s)	342
MspCI	CTTAAG	1 cut(s)	341
MwoI	GCNNNNNNNGC	4 cut(s)	47, 296, 332, 346
NdeII	GATC	1 cut(s)	362
NlaIII	CATG	6 cut(s)	127, 206, 215, 320, 449, 532
NlaIV	GGNNCC	2 cut(s)	30, 310
NmeAIII	GCCGAG	1 cut(s)	220
NspI	RCATGY	2 cut(s)	127, 449
PfeI	GAWTC	1 cut(s)	5
PkrI	GCNGC	5 cut(s)	43, 46, 49, 235, 238
PleI	GAGTC	1 cut(s)	125
PpsI	GAGTC	1 cut(s)	125
PsiI	TTATAA	1 cut(s)	153
Psp124BI	GAGCTC	1 cut(s)	301
PspN4I	GGNNCC	2 cut(s)	30, 310
PspPI	GGNCC	1 cut(s)	308
PsrI	GAACNNNNNNTAC	2 cut(s)	104, 136
PsuI	RGATCY	1 cut(s)	362
SacI	GAGCTC	1 cut(s)	301
SaqAI	TTAA	1 cut(s)	342
SatI	GCNGC	5 cut(s)	42, 45, 48, 234, 237
Sau3AI	GATC	1 cut(s)	362
Sau96I	GGNCC	1 cut(s)	308
SchI	GAGTC	1 cut(s)	125
SduI	GDGCHC	1 cut(s)	301
SetI	ASST	7 cut(s)	52, 99, 151, 292, 301, 511, 563
SfaNI	GCATC	2 cut(s)	253, 336
SinI	GGWCC	1 cut(s)	308
SmlI	CTYRAG	2 cut(s)	341, 514
SmoI	CTYRAG	2 cut(s)	341, 514
Sse9I	AATT	4 cut(s)	220, 357, 421, 488
SsiI	CCGC	1 cut(s)	438
SspMI	CTAG	4 cut(s)	128, 470, 506, 583
SstI	GAGCTC	1 cut(s)	301
StyI	CCWWGG	1 cut(s)	135
TaaI	ACNGT	1 cut(s)	277
TaiI	ACGT	1 cut(s)	563
TasI	AATT	4 cut(s)	220, 357, 421, 488
TfiI	GAWTC	1 cut(s)	5
Tru1I	TTAA	1 cut(s)	342
Tru9I	TTAA	1 cut(s)	342
TscAI	CASTG	2 cut(s)	280, 584
TseI	GCWGC	5 cut(s)	41, 44, 47, 233, 236
TspDTI	ATGAA	4 cut(s)	184, 233, 305, 376
TspRI	CASTG	2 cut(s)	280, 584
Vha464I	CTTAAG	1 cut(s)	341
VpaK11BI	GGWCC	1 cut(s)	308
XapI	RAATTY	1 cut(s)	421
XceI	RCATGY	2 cut(s)	127, 449
XspI	CTAG	4 cut(s)	128, 470, 506, 583

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.